Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-5-Internal Loop pdb1yl41A.n280-302
Source: [PDB-id:chain] 1yl4:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF 70S RIBOSOME WITH THRS OPERATOR AND TRNAS. 30S SUBUNIT. THE COORDINATES FOR THE 50S SUBUNIT ARE IN THE PDB ENTRY 1YL3
Source: Compound 16S RRNA
Source: Resolution 5.50 ANGSTROMS.
Position (281, 301), (284, 295)
Primary structure ('_': anchors) _CG_-_GGCCG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 6: O4'-endo, 8: C2'-exo, 10: C4'-exo, 11: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 10 →
2 4 6 →
3 5 6 ↑
4 9 10 ↑
5 10 11 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 11 Watson-Crick/Watson-Crick cis
2 2 6 O2'/Bifurcated ?
3 3 4 Hoogsteen/O2' ?
4 3 6 Bifurcated/O2' ?
5 3 9 Bifurcated/Watson-Crick cis y
6 4 5 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters